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To display and/or sort additional data, you must return to the Columns Results Type Tab and/or Sorting tabs Tab to set display parameters, then re-run the search. The new search results will display the additional information, with the columns and data sorted as you specified. See Results Type Tab and Sorting Tab.
caIntegrator paginates search results into pages of configurable size (default 20) with standard paginated navigation controls. To sort columns by ascending or descending parameters for on any displayed field, click on the underlined column header.
The query results that can display depend upon the criteria you established for the search. Follow the links below for more information about the category of data you searched.
You can download search results as a CSV file. The file contains the annotations, columns and data sort configurations you specified in the search query. See #Exporting Data.
Browsing Query Results
The query results that can display depend upon the criteria you established for the search. Follow the links below for more information about the category of data you searched.
See #Subject Annotation and Imaging Data, #Gene Expression Data, and #Expanding Imaging Data Results.
Subject Annotation and Imaging Data Results
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If you run the search before configuring column and sort display parameters, only the \[subject\] ID that meet the criteria and a column allowing you to select each row appear on the table, as shown in the following figure. !imaging subj ID only75.png|vspace=4, alt="Query Results page"! |
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For Gene criteria, the cells display the median gene expression value for each gene. By Next to each gene symbol, caIntegrator displays an icon (
) which you can click to open the Cancer Genome Anatomy Project (CGAP) showing data for the gene. An example shows Icons are identified in the following figure.
If you have selected Gene Expression on the Results Type tab, then the column headers are a clickable label which sorts the entire table on that column. If you selected Reporter ID on the Results Type tab, the Reporter ID is clickable (and the gene is not clickable).
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You can save genes identified in the search results as a gene list. For more information, see #Creating a Gene or Subject List.
Copy Number Data Results
If after After defining copy number criteria on the Criteria tab and running a copy number query, (see Copy Number Searches), you should select the Copy Number result type on the Results Type Tab, and rerun the query. Copy number data search results display in a data matrix containing samples vs. genomic regions.
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- Click the Create New List link in the left sidebar. This opens the Manage List page, shown in the following figure.
- Enter a name for the gene or subject list.
- Enter a description (optional).
- Select Make Visible to Others if you want the list to be visible to anyone who views the study. This selection places the list in the Global List folder in the left sidebar under Saved Lists. In any box where you can select lists, the term 'Global' will identify any list so identified when the list is created.
- Select the List Type, Subject or Gene.
- If you select Subject, enter the Subject IDs in the text box that appears. Proceed with step 7.
- If you select Gene, proceed with step 6.
- For Gene Symbol, enter one or more gene symbols in the text box or click the icons to locate genes in the following databases. If you enter more than one gene in the text box, separate the entries by commas.
caIntegrator provides three methods whereby you can obtain gene symbols for creating a gene list:. For more information, see #Choosing Genes. - If you so choose, you can upload a gene or subject ID list. For the Upload File field, click the Browse button to navigate to a .csv file made up of gene symbols. caIntegrator converts the comma-separated content to a gene list.
Wiki Markup Click *Create List* at the bottom of the page. caIntegrator now opens the Edit \[Subject or Gene\] List page which shows the name and symbols of the newest gene list, shown in the following figure. !edit gene list80.png|vspace=4, alt="The Edit Gene List for reviewing, editing the name or deleting a gene list. The Edit Subject List page is comparable."!
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